introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

6 rows where transcript_id = 34437927

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
193125545 GC-AG 0 0.0008163374469683 978 rna-SMICCKB8_LOCUS101 34437927 1 17027 18004 Symbiodinium sp. kb8 230985 AGG|GCCTCCCTGG...TGGGTCTAATCT/CTGGGTCTAATC...GAGAG|GCG 0 1 7.933
193125546 GC-AG 0 4.588103075617863 1434 rna-SMICCKB8_LOCUS101 34437927 2 15565 16998 Symbiodinium sp. kb8 230985 CTA|GCATCCTGGC...GAACCCTTGAAG/CCAAACCTGAAT...CCGAG|GCT 1 1 14.663
193125547 GC-AG 0 0.000270441639587 1384 rna-SMICCKB8_LOCUS101 34437927 3 14131 15514 Symbiodinium sp. kb8 230985 CAG|GCACCTTTCA...AAACCCATATTA/CAGCCCCTTAAT...TGGAG|GTG 0 1 26.683
193125548 GA-AG 0 1.000000099473604e-05 471 rna-SMICCKB8_LOCUS101 34437927 4 13579 14049 Symbiodinium sp. kb8 230985 GAG|GACAGCAGGT...AGGTTCTTGAAA/AGGTTCTTGAAA...GCGAG|GAG 0 1 46.154
193125549 GT-AG 0 1.000000099473604e-05 573 rna-SMICCKB8_LOCUS101 34437927 5 12931 13503 Symbiodinium sp. kb8 230985 CTG|GTGGGTTGGC...TAAACCTTAAAC/CTAAACCTTAAA...GTCAG|GTC 0 1 64.183
193125550 GA-AG 0 0.0442527471845773 853 rna-SMICCKB8_LOCUS101 34437927 6 11998 12850 Symbiodinium sp. kb8 230985 GAT|GATCCTTGGG...AAGCCCTGGACC/AAAGTACACAGA...TTCAG|GAA 2 1 83.413

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);